Resolve Biosciences’ Post

🌟 𝗪𝗲𝗹𝗰𝗼𝗺𝗲 𝗮 𝗻𝗲𝘄 𝘁𝗼𝗼𝗹 𝗶𝗻 𝗦𝗽𝗮𝘁𝗶𝗮𝗹 𝗧𝗿𝗮𝗻𝘀𝗰𝗿𝗶𝗽𝘁𝗼𝗺𝗶𝗰𝘀! 🌟 A new study introduces #GraphPCA, a fast, interpretable, and scalable 𝗱𝗶𝗺𝗲𝗻𝘀𝗶𝗼𝗻 𝗿𝗲𝗱𝘂𝗰𝘁𝗶𝗼𝗻 𝗮𝗹𝗴𝗼𝗿𝗶𝘁𝗵𝗺 𝘁𝗮𝗶𝗹𝗼𝗿𝗲𝗱 𝗳𝗼𝗿 𝘀𝗽𝗮𝘁𝗶𝗮𝗹 𝘁𝗿𝗮𝗻𝘀𝗰𝗿𝗶𝗽𝘁𝗼𝗺𝗶𝗰𝘀 𝗱𝗮𝘁𝗮. Published in Genome Biology, this method combines graph regularization with PCA to enhance spatial domain detection, denoising, and trajectory inference (the process of reconstructing the progression of cellular states or spatial patterns across a tissue). 🔑 𝗞𝗲𝘆 𝗛𝗶𝗴𝗵𝗹𝗶𝗴𝗵𝘁𝘀:    ▪️ GraphPCA integrates spatial location and gene expression data for more accurate low-dimensional embeddings.    ▪️ Outperforms state-of-the-art of algorithm like #PCA, #SpaGCN (is graph convolutional network (#GCN) that integrates gene expression, spatial location, and histology data to identify spatial domains and spatially variable genes https://lnkd.in/eDXwNkP6), and #STAGATE (incorporates a cell type-aware module for low-resolution data, enhancing its ability to identify small spatial domains https://lnkd.in/evG6NEZa) in clustering accuracy and computational efficiency.    ▪️ Successfully applied to diverse datasets, including human brain, mouse liver, and high-resolution single-cell data.    ▪️ Enables denoising of gene expression profiles and multi-sample integration for improved downstream analyses. 💡 𝗪𝗵𝘆 𝗜𝘁 𝗠𝗮𝘁𝘁𝗲𝗿𝘀: GraphPCA is poised to revolutionize our understanding of cellular heterogeneity and spatial gene expression patterns. By providing clearer insights into the spatial organization and interactions of cells within tissues, this method will pave the way for new discoveries in fields such as developmental biology, cancer research, and neuroscience. GraphPCA is a game-changer for analyzing complex spatial transcriptomics data, offering both speed and biological interpretability. 📚 Read the full study here: https://lnkd.in/eAqiPBvY ⛓️ GitHub: https://lnkd.in/eeXKMwzG 🌐 Tutorial: https://lnkd.in/eTu-uUNy Compiled by: Hassiba Belahbib #bioinformatics #spatialtranscriptomics #Genomics #PCA #computationalbiolog #dataanalysis #geneexpression #GenomeBiology

🔬 Unlocking the Spatial Context of Tissues with scProAtlas 🔬 Spatial proteomics offers powerful insights into protein expression within tissues at single-cell resolution, revealing the intricate spatial context that shapes cellular behavior. While it can't detect as many proteins as spatial transcriptomics, it provides rich spatial data, highlighting the distribution of cell types, functional structures, and the communication between tissue regions. here comes scProAtlas – a comprehensive spatial proteomics knowledgebase designed to help researchers explore tissue architecture at multiple scales. With data from eight spatial protein imaging techniques across 15 tissue types, scProAtlas integrates neighborhood analysis, cell-cell interactions, spatial pathway analysis, and more to reveal patterns of cellular distribution. 🔑 Key features: 17M+ cells from 945 regions of interest Multi-modal integration for spatial gene identification Detailed functional annotations and spatial maps Discover how scProAtlas can deepen our understanding of tissue organization and function: scProAtlas https://lnkd.in/dEHB5VCd #SpatialProteomics #SingleCellResolution #scProAtlas #TissueMapping #Bioinformatics #Proteomics #CellularInsight

The Molecular Twin's Bold Vision - Betteromics simplifies multiomic analysis by integrating diverse omics datasets—such as genomics, transcriptomics, proteomics, and metabolomics—into a single, unified knowledge graph. This centralized platform enables researchers to seamlessly explore relationships across these datasets, without the need for complex, manual data harmonization. With built-in AI-driven analysis, Betteromics automatically identifies patterns and correlations across omic layers, streamlining biomarker discovery and hypothesis generation. Additionally, by providing real-time querying and intuitive data visualization, the platform allows researchers to uncover insights faster and more accurately, reducing the complexity and time traditionally required for multiomic analysis. This enables life sciences teams to focus on actionable findings, accelerating research and the development of precision medicine solutions. #bioinformatics #genomics #oncology #ai https://lnkd.in/ePkt8r7J

Did you know the power of high-plex, high-throughput #proteomics from @SomaLogic could accelerate your research? And you can have that power onsite for your own studies – or to generate revenue. This renowned genomics lab director explains: #aptamers #biomarkers #ABRF2024

Multiomics research is transforming our understanding of biology by integrating data from genomics, transcriptomics, proteomics, and other domains to reveal comprehensive insights into biological systems

A recent survey of the “dark proteome” has unveiled thousands of previously unrecognized human genes, shedding light on the vast, uncharted territories of our genome. At NonExomics, we have been at the forefront of this exploration since our inception in 2016. Thanks to Science Magazine for recognizing this. Our proprietary platform integrates genomics, transcriptomics, proteomics, and artificial intelligence to identify and validate over 250,000 noncanonical proteins across the entire human genome. By focusing on these novel proteins, we aim to revolutionize drug discovery and therapeutic interventions for a wide range of human diseases. The recent findings in the dark proteome underscore the significance of our mission and the potential impact of our work. We are excited to continue leading the charge in decoding the mysteries of the human genome and translating these discoveries into tangible health benefits. #DarkProteome #NonExomics #Genomics #Proteomics #AI #DrugDiscovery #Biotechnology #Innovation #PioneeringResearch https://lnkd.in/g93qfKag

🧬 Vissium Technology: Revolutionizing Spatial Transcriptomics 🧬 Vissium technology is setting a new standard in spatial transcriptomics, enabling scientists to visualize gene expression directly in tissue samples—without losing spatial context. This game-changing approach allows researchers to map RNA data across entire tissue sections, revealing insights into complex tissue architecture and cellular interactions. Here’s why it’s a big deal: - High-Resolution Spatial Mapping📍: Vissium technology offers an unprecedented look at where specific genes are expressed within tissues, helping researchers understand cellular behavior in the native environment. - Uncovering Tissue Complexity 🔍: By preserving the spatial organization of tissues, we can explore gene expression patterns that define cell types, cell states, and interactions at an unprecedented level. - State-of-the-Art Analysis Models 🧠: Advanced deep learning models like SpatialDE, ST-Net, and BayesSpace are now widely used to analyze Vissium data. These models can identify spatial gene patterns, distinguish tissue regions, and even predict cell type and function in specific areas. - Applications in Health and Disease 🩺: From cancer research to neuroscience, spatial transcriptomics with Vissium allows for a more accurate view of tissue organization and cellular interplay, providing key insights into disease mechanisms and therapeutic targets. With Vissium, we’re making strides in spatial biology and transforming our approach to understanding tissue function and disease! 🌐✨ #SpatialTranscriptomics #Vissium #SpatialBiology #DeepLearning #Genomics

Today's #InterestingRead celebrates 𝗦𝗽𝗮𝘁𝗶𝗮𝗹 𝗣𝗿𝗼𝘁𝗲𝗼𝗺𝗶𝗰𝘀 as Nature Methods’ 2024 Method of the Year! 🧬 This transformative field offers powerful techniques to create detailed protein maps of tissues, uncovering the spatial organization of cells in health and disease. Key highlights: 🌍 Driving atlas-scale projects like HuBMAP and HTAN 🔬 Revolutionizing cancer research and precision medicine 📊 Combining multi-omics and AI for deeper biological insights 💡 𝙍𝙚𝙖𝙙 𝙩𝙝𝙚 𝙛𝙪𝙡𝙡 𝙖𝙧𝙩𝙞𝙘𝙡𝙚 𝙝𝙚𝙧𝙚: https://lnkd.in/dsUzyygE #SpatialBiology #Proteomics #Innovation #PrecisionMedicine #Bioinformatics

Exploring Next Generation Sequencing (NGS): A Leap in Genomics 🧬 Next Generation Sequencing (NGS) has revolutionized the field of genomics, enabling researchers to analyze genetic material at an unprecedented scale and speed. The image illustrates the key steps of the NGS workflow: 1️⃣ DNA Extraction: The journey begins with isolating DNA or RNA from the sample, ensuring high-quality genetic material for analysis. 2️⃣ Library Preparation: The DNA is fragmented into smaller pieces, and specialized adapters are added to prepare it for sequencing. 3️⃣ Sequencing: Using high-throughput technologies, millions of DNA fragments are read simultaneously, generating massive amounts of data. 4️⃣ Data Analysis: Sophisticated bioinformatics tools align and interpret the sequencing data, providing insights into gene expression, mutations, and more. NGS is transforming fields like personalized medicine, oncology, infectious disease research, and beyond. Its ability to uncover genetic variations and provide insights into complex biological systems is driving innovation in healthcare and research. What excites you most about the potential of NGS? Let’s discuss in the comments! #NextGenerationSequencing #Genomics #Biotechnology #Bioinformatics #InnovationInScience #PersonalizedMedicine #BiomedicalEngineering

10x Genomics Single Cell & Spatial Discovery recently showcased the remarkable speed of Xenium, drastically reducing the processing time for tissue microarray organoids from 2 weeks to a mere 2 days. Additionally, the new Xenium Cell Segmentation kit was highlighted for its effectiveness in distinguishing various cell types and assigning transcripts, particularly beneficial for challenging samples such as bone marrow and heart tissue. #precisionmedicine #personalizedmedicine #technologythatmatters